Variant report

Variant	rs9487062
Chromosome Location	chr6:109657388-109657389
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAX	chr6:109657353-109658313	HCT-116	colon:	n/a	chr6:109658216-109658225 chr6:109657661-109657671
2	MAX	chr6:109657286-109658332	HCT-116	colon:	n/a	chr6:109658216-109658225 chr6:109657661-109657671
3	JUN	chr6:109657285-109658256	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:109655737..109658352-chr6:109659760..109662191,3	K562	blood:
2	chr6:109654193..109659063-chr6:109701671..109705275,8	MCF-7	breast:
3	chr6:109656306..109660874-chr6:109662231..109666521,7	MCF-7	breast:
4	chr6:109609462..109612030-chr6:109655283..109657782,2	K562	blood:
5	chr6:109656578..109659405-chr6:109702174..109705135,3	MCF-7	breast:
6	chr6:109655906..109657888-chr6:109704204..109706097,2	K562	blood:
7	chr6:109652928..109655072-chr6:109655937..109657890,2	MCF-7	breast:
8	chr6:109651102..109653530-chr6:109656449..109659654,3	MCF-7	breast:

Variant related genes	Relation type
CCDC162P	TF binding region
ENSG00000260273	Chromatin interaction
ENSG00000203799	Chromatin interaction
ENSG00000233908	Chromatin interaction
ENSG00000219700	Chromatin interaction
ENSG00000135535	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs13362707	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28738871	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9480927	0.85[MKK][hapmap]
rs9480940	1.00[AMR][1000 genomes]
rs9480941	0.82[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9487063	0.82[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9487065	1.00[AMR][1000 genomes]
rs9487073	1.00[AMR][1000 genomes]
rs9487079	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9487080	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9487120	0.85[MKK][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv5435	chr6:109633035-109669127	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109644600-109675200	Weak transcription	Primary T cells from cord blood	blood
2	chr6:109644800-109657400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr6:109645400-109662400	Weak transcription	Aorta	Aorta
4	chr6:109653400-109658800	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr6:109654000-109657400	Weak transcription	Pancreas	Pancrea
6	chr6:109654000-109657600	Weak transcription	Adipose Nuclei	Adipose
7	chr6:109654000-109669400	Weak transcription	Small Intestine	intestine
8	chr6:109654200-109657400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr6:109654200-109671000	Weak transcription	Spleen	Spleen
10	chr6:109654200-109675000	Weak transcription	Primary B cells from peripheral blood	blood
11	chr6:109654200-109676200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr6:109654400-109657400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:109654400-109657400	Weak transcription	Placenta	Placenta
14	chr6:109654400-109657400	Weak transcription	Right Ventricle	heart
15	chr6:109654400-109657400	Weak transcription	Hela-S3	cervix
16	chr6:109654400-109657600	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr6:109654400-109657600	Weak transcription	Duodenum Mucosa	Duodenum
18	chr6:109654400-109657800	Weak transcription	K562	blood
19	chr6:109654400-109660600	Weak transcription	Fetal Muscle Leg	muscle
20	chr6:109654400-109668800	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr6:109654600-109657400	Weak transcription	HepG2	liver
22	chr6:109655800-109658800	Enhancers	Sigmoid Colon	Sigmoid Colon
23	chr6:109655800-109659000	Enhancers	Stomach Mucosa	stomach
24	chr6:109656400-109658600	Enhancers	Colonic Mucosa	Colon
25	chr6:109656600-109658600	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr6:109656800-109657600	Weak transcription	Fetal Intestine Small	intestine
27	chr6:109656800-109658000	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr6:109656800-109662600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr6:109657000-109658200	Enhancers	Rectal Mucosa Donor 29	rectum
30	chr6:109657200-109658000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr6:109657200-109658200	Enhancers	Brain Substantia Nigra	brain
32	chr6:109657200-109658800	Enhancers	Gastric	stomach

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